From patterns to pathways: gene expression data analysis comes of age

DK Slonim - Nature genetics, 2002‏ - nature.com
Many different biological questions are routinely studied using transcriptional profiling on
microarrays. A wide range of approaches are available for gleaning insights from the data …

Antioxidants, reactive oxygen and nitrogen species, gene induction and mitochondrial function

MJ Jackson, S Papa, J Bolaños, R Bruckdorfer… - Molecular aspects of …, 2002‏ - Elsevier
There has been increasing interest, in recent years, in the possibility that reactive
oxygen/nitrogen species (ROS/RNS) act as signals, or mediators of changes, in cell function …

[ספר][B] Handbook of natural language processing

N Indurkhya, FJ Damerau - 2010‏ - taylorfrancis.com
The Handbook of Natural Language Processing, Second Edition presents practical tools
and techniques for implementing natural language processing in computer systems. Along …

Unsupervised grouped axial data modeling via hierarchical Bayesian nonparametric models with Watson distributions

W Fan, L Yang, N Bouguila - IEEE Transactions on Pattern …, 2021‏ - ieeexplore.ieee.org
This paper aims at proposing an unsupervised hierarchical nonparametric Bayesian
framework for modeling axial data (ie, observations are axes of direction) that can be …

A literature network of human genes for high-throughput analysis of gene expression

TK Jenssen, A Lægreid, J Komorowski, E Hovig - Nature genetics, 2001‏ - nature.com
We have carried out automated extraction of explicit and implicit biomedical knowledge from
publicly available gene and text databases to create a gene-to-gene co-citation network for …

[ספר][B] Text mining for biology and biomedicine

S Ananiadou, J McNaught - 2006‏ - Citeseer
Text mining is defined by Hearst (1999) as the automatic discovery of new, previously
unknown, information from unstructured textual data. This is often seen as comprising of …

Content-rich biological network constructed by mining PubMed abstracts

H Chen, BM Sharp - BMC bioinformatics, 2004‏ - Springer
Background The integration of the rapidly expanding corpus of information about the
genome, transcriptome, and proteome, engendered by powerful technological advances …

Text mining: generating hypotheses from MEDLINE

P Srinivasan - Journal of the American Society for Information …, 2004‏ - Wiley Online Library
Hypothesis generation, a crucial initial step for making scientific discoveries, relies on prior
knowledge, experience, and intuition. Chance connections made between seemingly …

Mining MEDLINE: abstracts, sentences, or phrases?

J Ding, D Berleant, D Nettleton, E Wurtele - Biocomputing 2002, 2001‏ - World Scientific
A growing body of works address automated mining of biochemical knowledge from digital
repositories of scientific literature, such as MEDLINE. Some of these works use abstracts as …

[HTML][HTML] GeneWays: a system for extracting, analyzing, visualizing, and integrating molecular pathway data

A Rzhetsky, I Iossifov, T Koike, M Krauthammer… - Journal of biomedical …, 2004‏ - Elsevier
The immense growth in the volume of research literature and experimental data in the field
of molecular biology calls for efficient automatic methods to capture and store information. In …